Mikhail ROYTBERG

Researcher at the Laboratory since October 2008

BORN: 27/12/1952, Kiev, Ukraine

Address: 142290, Russia, Pushchino, Moscow Region, District "D", building 5, apt. 80

EDUCATION

1986, Ph.D., Computer Science; 1974, M.S., Mathematics

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INSTITUTE of MATHEMATICAL PROBLEMS of BIOLOGY, RUSSIAN ACADEMY of SCIENCES.

1992 - 2006 "Computational Molecular Biology" Research Group, Group Leader

2007 - Present Lab of Applied Mathematics, Head of the Lab

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VISITING POSITIONS

Laboratory of Research in Informatics and Algorithms (LORIA), Nancy, France

2003, November-December; 2004, May- July;

Laboratory of Fundamental Research in Informatics (Lille, France), INRIA (Roquencourt, France)

2005, September-November; 2006, November - December; 2007, November - December

National Center of Biotechnology Information, Bethesda, MD

2000, October-December; 2004, January-March

Rutgers University, Math Dept, New Brunswick, NJ

1998, October-December; 1999, May-June and November-December

University of Southern California, Dept. of Mathematics, Los Angeles, CA

1996, March-May and October-November; 1997, March-May

Georgia Inst. of Technology, School of Biology, Atlanta, GA

1994, November-December; 2005, June-July

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CONSULTING

2001 - 2003, Algodign LLC, Head of Bioinformatics Group

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TEACHING EXPERIENCE

1997 - Present: Pushchino State University

2000 - 2001: Moscow Institute of Physics and Technology ("Phystech")

2001, 2004-2007: Moscow State University

RESEARCH INTERESTS

Bioinformatics (algorithms in bioinformatics, in particular, sequence comparison, RNA structure). Software design. Education (Math, Science).

GRANTS and AWARDS

Team leader in grants from RFBR, Russia (1994-2008), ECO-NET, France (2005-2006), NWO, The Netherlands (2001-2004), INTAS (2000-2002, 2006-2007) Merck (2000-2001) A.A.Baev Award (1997)

SOME PUBLICATIONS:

1. Boeva V, Clement J, Regnier M, Roytberg MA, Makeev VJ. Exact p-value calculation for heterotypic clusters of regulatory motifs and its application in computational annotation of cis-regulatory modules. Algorithms Mol Biol. 2007 Oct 10;2(1)

   Asthana S., Roytberg M., Stamatoyannopoulos J., Sunyaev S, Analysis of sequence conservation at nucleotide resolution, PLoS Comput Biol. 2007 Dec;3(12):e254.

   Backofen R, Chen S, Hermelin D, Landau GM, Roytberg MA, Weimann O, Zhang K. Locality and gaps in RNA comparison, J Comput Biol. 2007 Oct;14(8):1074-87.

   Ogurtsov, A.Yu, Shabalina, S.A., Kondrashov, A.S., Roytberg M.A. Analysis of internal loops within the RNA secondary structure in almost quadratic time. Bioinformatics, 2006, Vol. 22, No. 11, 1317-1324

   Kucherov, G., Noé, L. Roytberg, M. A unifying framework for seed sensitivity and its application to subset seeds. Journal of Bioinformatics and Computational Biology, 2006, Vol. 4, No. 2, 553-569

   Kucherov, G., Noé, L. Roytberg, M. Multi-seed lossless filtration. IEEE/ACM Transactions on Computational Biology and Bioinformatics, January-March 2005, Vol. 2, No. 1, 51-61.

   Sunyaev, G.A. Bogopolsky, N.V. Oleynikova, P.K. Vlasov, A.V. Finkelstein, M.A. Roytberg. From Analysis of Protein Structural Alignments Toward a Novel Approach to Align Protein Sequences. PROTEINS: Structure, Function, and Bioinformatics, 2004, 54(3), 569-582

   Roytberg, M.A Ogurtsov, A.Y., Shabalina, S.A., Kondrashov A.S. A hierarchical approach to aligning collinear regions of genomes. Bioinformatics 2002 18: 1673-1680

   Roytberg M.A., Semionenkov M.N., Tabolina O.Yu. Pareto-optimal Alignment of Biological Sequences. Biophysics, Vol. 44, No. 4, 1999, pp. 565-577. Translated from Biofizika, Vol. 44, No. 4, 1999, pp. 581-594.

   Gelfand M.S., Podolsky L.I., Astakhova T.V., Roytberg M.A. Recognition of genes in human DNA sequences. J Comput Biol. 1996 Summer;3(2):223-34.

   Finkelstein A.V., Roytberg M.A. Computation of biopolymers: a general approach to different problems. Biosystems. 1993;30(1-3):1-19.